A robust procedure for removing background damage in assays of radiation-induced DNA fragment distributions.

Abstract:

:The non-random distribution of DNA breakage in PFGE (pulsed-field gel electrophoresis) experiments poses a problem of proper subtraction of the background DNA damage to obtain a fragment-size distribution due to radiation only. A naive bin-to-bin subtraction of the background signal will not result in the right DNA mass distribution histogram. This problem could become more pronounced for high-LET (linear energy transfer) radiation, because the fragment-size distribution manifests a higher frequency of smaller fragments. Previous systematic subtraction methods have been based on random breakage, appropriate for low-LET radiation. Moreover, an investigation is needed to determine whether the background breakage is itself random or non-random. We consider two limiting cases: (1) the background damage is present in all cells, and (2) it is present in only a small subset of cells, while other cells are not contributing to the background DNA fragmentation. We give a generalized formalism based on stochastic processes for the subtraction of the background damage in PFGE experiments for any LET and apply it to two sets of PFGE data for iron ions.

journal_name

Radiat Res

journal_title

Radiation research

authors

Ponomarev AL,Belli M,Hahnfeldt PJ,Hlatky L,Sachs RK,Cucinotta FA

doi

10.1667/RR0663.1

subject

Has Abstract

pub_date

2006-12-01 00:00:00

pages

908-16

issue

6

eissn

0033-7587

issn

1938-5404

pii

RR0663

journal_volume

166

pub_type

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